Table 1.
List of 5′UTR candidates with features.
| NCBI Gene ID | Gene | Conservation by BLAST | Rfam prediction | Characteristics of known riboswitches in other organisms | Transcript expression under stress | Protein expression in ethanol stress | Type of stress induced differential GFP expression |
|---|---|---|---|---|---|---|---|
| ZMO0172 | Thiamin biosynthesis protein/phosphomethylpyrimidine synthase | Highly conserved | TPP | TPP riboswitch in E.coli | – | – | Acetate; xylose |
| ZMO0979 | TonB-dependent receptor | Highly conserved | Cobalamin | AdoCbl | Down in acetate stress; down in xylose stress | – | – |
| ZMO1000 | 5-methyltetrahydropteroyltriglutamate | Highly conserved | Cobalamin | metE in E.coli/Bacillus | Up in xylose | – | Acetate |
| ZMO0547 | chloride channel core | Conserved with Gluconobacter | crcB | Fluoride riboswitches | – | – | – |
| ZMO0056 | Glucosamine/fructose-6-phosphate aminotransferase | – | – | glmS ribozyme | – | – | – |
| ZMO0376 | ATP-dependent protease La | – | – | – | – | – | – |
| ZMO0546 | sulfate transporter | – | – | ABC transporter family | Up in 5% ethanol stress; up in xylose stress | – | Acetate |
| ZMO0660 | DnaK molecular chaperone DnaK | – | – | – | – | – | – |
| ZMO1069 | molecular chaperone DnaJ | Highly conserved | – | – | – | – | – |
| ZMO1139 | Acetolactate synthase large subunit | – | – | – | Up in xylose | – | – |
| ZMO1142 | Thioredoxin reductase | – | – | – | Up in xylose stress; down in ethanol | Up | Ethanol |
| ZMO0709 | Phosphoribosylaminoimidazole synthetase | Conserved with Lactobacillus | – | – | – | – | – |
| ZMO1137 | Phosphoserine phosphatase SerB | Somewhat conserved | – | serC regulated by glycine riboswitch | – | – | – |
| ZMO0187 | 3-deoxy-7-phosphoheptulonate synthase | – | – | – | – | – | Xylose |
| ZMO0369 | Glucokinase | – | – | – | – | – | – |
| ZMO0405 | ATP-dependent Clp protease ATP-binding subunit ClpA | – | – | – | Up in xylose stress; down in ethanol stress | Up | – |
| ZMO0937 | Aromatic amino acid aminotransferase | – | – | – | Down in acetate stress; down in xylose stress | – | – |
| ZMO1179 | (uracil-5)-methyltransferase | – | – | – | Up in ethanol stress | – | – |
| ZMO1275 | Threonine dehydratase | Conserved with Clostridium | – | – | – | – | – |
| ZMO0689 | Oxidoreductase domain-containing protein | – | – | – | Down in xylose stress | Up | – |
| ZMO0131 | Metallophosphoesterase | – | – | – | Down in acetate stress; down in xylose stress | – | – |
| ZMO0748 | Cysteine synthase | – | – | – | Up in acetate stress; up in xylose stress | – | – |
| ZMO1034 | Calcium-binding EF-hand-containing protein | – | – | – | Up in acetate stress; up in xylose stress | Up | – |
| ZMO1113 | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | – | – | – | Up in xylose | – | – |
| ZMO0347 | RNA-binding protein Hfq | Conserved with Clostridium | – | – | Down in ethanol stress | Up | Ethanol |
| ZMO1198 | 5-aminolevulinate synthase | – | – | – | Down in xylose stress | – | – |
| ZMO1478 | 6-phosphogluconolactonase | – | – | – | – | – | Acetate |
| ZMO0275 | ABC transporter | – | – | – | – | – | – |
| ZMO1399 | fatty acid hydroxylase | – | – | – | – | – | – |
| ZMO1432 | Fusaric acid resistance protein | – | – | – | – | – | – |
| ZMO0367 | glucose-6-phosphate 1-dehydrogenase | – | – | – | Up in ethanol stress | Down | – |
| ZMO1412 | MucR family transcriptional regulator | – | – | – | Down in ethanol stress | Up | – |
| ZMO1048 | Phosphate ABC transporter inner membrane subunit PstC | – | – | – | – | – | – |
| ZMO0140 | Protein tyrosine phosphatase | – | – | – | – | – | – |
| ZMO0366 | Sugar transporter | – | – | – | – | – | – |
| ZMO1612 | Toluene tolerance family protein | – | – | – | – | – | – |